Hi, I've created a workflow that works well. The workflow accepts 2 input files. After uploading all my input files (there is a lot). How can I batch the process, because I don't want to select files manually and run each job manually. Is there a way to batch this action? Thanks Neil
Hi Neil, if you run your workflow, there is small little symbol/icon (looks like papers). If you click these ... you can select multiple input files at once. Also you can probably use the Galaxy API for your task [1]. Happy research! Bjoern [1] http://wiki.g2.bx.psu.edu/Learn/API
Hi, I've created a workflow that works well. The workflow accepts 2 input files. After uploading all my input files (there is a lot). How can I batch the process, because I don't want to select files manually and run each job manually. Is there a way to batch this action?
Thanks Neil ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
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-- Björn Grüning Albert-Ludwigs-Universität Freiburg Institute of Pharmaceutical Sciences Pharmaceutical Bioinformatics Hermann-Herder-Strasse 9 D-79104 Freiburg i. Br. Tel.: +49 761 203-4872 Fax.: +49 761 203-97769 E-Mail: bjoern.gruening@pharmazie.uni-freiburg.de Web: http://www.pharmaceutical-bioinformatics.org/ Tel.: +49 761 203-4872 Fax.: +49 761 203-97769 E-Mail: bjoern.gruening@pharmazie.uni-freiburg.de Web: http://www.pharmaceutical-bioinformatics.org/
On Fri, Oct 26, 2012 at 7:46 AM, Björn Grüning <bjoern.gruening@pharmazie.uni-freiburg.de> wrote:
Hi Neil,
if you run your workflow, there is small little symbol/icon (looks like papers). If you click these ... you can select multiple input files at once. Also you can probably use the Galaxy API for your task [1].
Well this would only work if one of the 2 input files Neil mentions is fix. Multiple input files selection doesn't work for workflows with more than one input files, unless there is only one input changing in each run and the rest are fix. At least as far as I know. Using the API might be your only option if this is the case. --Carlos
Thanks Bjorn, But I can't seem to locate the symbol/icon (looks like papers). Is there any documentation where it is located on the screen? Thanks Neil -----Original Message----- From: Björn Grüning [mailto:bjoern.gruening@pharmazie.uni-freiburg.de] Sent: Friday, 26 October 2012 9:47 PM To: Burdett, Neil (ICT Centre, Herston - RBWH) Cc: galaxy-user@lists.bx.psu.edu Subject: Re: [galaxy-user] Batch jobs... Hi Neil, if you run your workflow, there is small little symbol/icon (looks like papers). If you click these ... you can select multiple input files at once. Also you can probably use the Galaxy API for your task [1]. Happy research! Bjoern [1] http://wiki.g2.bx.psu.edu/Learn/API
Hi, I've created a workflow that works well. The workflow accepts 2 input files. After uploading all my input files (there is a lot). How can I batch the process, because I don't want to select files manually and run each job manually. Is there a way to batch this action?
Thanks Neil ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Björn Grüning Albert-Ludwigs-Universität Freiburg Institute of Pharmaceutical Sciences Pharmaceutical Bioinformatics Hermann-Herder-Strasse 9 D-79104 Freiburg i. Br. Tel.: +49 761 203-4872 Fax.: +49 761 203-97769 E-Mail: bjoern.gruening@pharmazie.uni-freiburg.de Web: http://www.pharmaceutical-bioinformatics.org/ Tel.: +49 761 203-4872 Fax.: +49 761 203-97769 E-Mail: bjoern.gruening@pharmazie.uni-freiburg.de Web: http://www.pharmaceutical-bioinformatics.org/
They were introduced and described in this news brief (with screenshots!): http://wiki.g2.bx.psu.edu/DevNewsBriefs/2011_05_20 Hope this helps, Dannon On Oct 30, 2012, at 7:33 PM, Neil.Burdett@csiro.au wrote:
Thanks Bjorn, But I can't seem to locate the symbol/icon (looks like papers). Is there any documentation where it is located on the screen?
Thanks Neil
-----Original Message----- From: Björn Grüning [mailto:bjoern.gruening@pharmazie.uni-freiburg.de] Sent: Friday, 26 October 2012 9:47 PM To: Burdett, Neil (ICT Centre, Herston - RBWH) Cc: galaxy-user@lists.bx.psu.edu Subject: Re: [galaxy-user] Batch jobs...
Hi Neil,
if you run your workflow, there is small little symbol/icon (looks like papers). If you click these ... you can select multiple input files at once. Also you can probably use the Galaxy API for your task [1].
Happy research! Bjoern
[1] http://wiki.g2.bx.psu.edu/Learn/API
Hi, I've created a workflow that works well. The workflow accepts 2 input files. After uploading all my input files (there is a lot). How can I batch the process, because I don't want to select files manually and run each job manually. Is there a way to batch this action?
Thanks Neil ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Björn Grüning Albert-Ludwigs-Universität Freiburg Institute of Pharmaceutical Sciences Pharmaceutical Bioinformatics Hermann-Herder-Strasse 9 D-79104 Freiburg i. Br.
Tel.: +49 761 203-4872 Fax.: +49 761 203-97769 E-Mail: bjoern.gruening@pharmazie.uni-freiburg.de Web: http://www.pharmaceutical-bioinformatics.org/
Tel.: +49 761 203-4872 Fax.: +49 761 203-97769 E-Mail: bjoern.gruening@pharmazie.uni-freiburg.de Web: http://www.pharmaceutical-bioinformatics.org/
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
participants (4)
-
Björn Grüning -
Carlos Borroto -
Dannon Baker -
Neil.Burdett＠csiro.au